data_3PNL
#
_model_server_result.job_id            isSJLt_xQqNks2ssCKvtmg 
_model_server_result.datetime_utc      '2024-11-22 13:51:42' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          3pnl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1228}' 
#
_entry.id    3PNL 
#
_exptl.entry_id    3PNL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            3PNL 
_cell.length_a            74.572 
_cell.length_b            74.572 
_cell.length_c            268.779 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3PNL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA tetrameric 4 author_and_software_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H 1 1,2 
A,B,C,D,E,F,G,H 2 1 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
covale ? covale1 A NE2 HIS 219 A HIS 218 1_555 C C2 GOL . A GOL 1228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.681 ? 
metalc ? metalc1 A O PHE 79 A PHE 78 1_555 F MG MG . B MG 1213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc2 B OD2 ASP 31 B ASP 30 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? 
metalc ? metalc3 B OD2 ASP 36 B ASP 35 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? 
metalc ? metalc4 B OD1 ASP 36 B ASP 35 1_555 F MG MG . B MG 1213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? 
metalc ? metalc5 B OD1 ASP 38 B ASP 37 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? 
metalc ? metalc6 B OD2 ASP 38 B ASP 37 1_555 F MG MG . B MG 1213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? 
metalc ? metalc7 H O HOH . B HOH 231 1_555 F MG MG . B MG 1213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
metalc ? metalc8 H O HOH . B HOH 254 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? 
metalc ? metalc9 D O1A ADP . B ADP 1211 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc10 D O1B ADP . B ADP 1211 1_555 E MG MG . B MG 1212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc11 D O1B ADP . B ADP 1211 1_555 F MG MG . B MG 1213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 O1 GOL sing 173 n n 
C1 C2 GOL sing 174 n n 
C1 H11 GOL sing 175 n n 
C1 H12 GOL sing 176 n n 
O1 HO1 GOL sing 177 n n 
C2 O2 GOL sing 178 n n 
C2 C3 GOL sing 179 n n 
C2 H2 GOL sing 180 n n 
O2 HO2 GOL sing 181 n n 
C3 O3 GOL sing 182 n n 
C3 H31 GOL sing 183 n n 
C3 H32 GOL sing 184 n n 
O3 HO3 GOL sing 185 n n 
#
_atom_sites.entry_id                     3PNL 
_atom_sites.fract_transf_matrix[1][1]    0.01341 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01341 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.003721 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
C 3 GOL A 1 1228 1228 GOL GOL . 
D 4 ADP B 1 1211 1211 ADP ADP . 
E 5 MG B 1 1212 1212 MG MG . 
F 5 MG B 1 1213 1213 MG MG . 
G 6 HOH A 1 357 1 HOH HOH . 
G 6 HOH A 2 358 2 HOH HOH . 
G 6 HOH A 3 359 3 HOH HOH . 
G 6 HOH A 4 360 4 HOH HOH . 
G 6 HOH A 5 361 5 HOH HOH . 
G 6 HOH A 6 362 6 HOH HOH . 
G 6 HOH A 7 363 7 HOH HOH . 
G 6 HOH A 8 364 8 HOH HOH . 
G 6 HOH A 9 365 9 HOH HOH . 
G 6 HOH A 10 366 15 HOH HOH . 
G 6 HOH A 11 367 16 HOH HOH . 
G 6 HOH A 12 368 17 HOH HOH . 
G 6 HOH A 13 369 19 HOH HOH . 
G 6 HOH A 14 370 22 HOH HOH . 
G 6 HOH A 15 371 23 HOH HOH . 
G 6 HOH A 16 372 24 HOH HOH . 
G 6 HOH A 17 373 25 HOH HOH . 
G 6 HOH A 18 374 26 HOH HOH . 
G 6 HOH A 19 375 27 HOH HOH . 
G 6 HOH A 20 376 29 HOH HOH . 
G 6 HOH A 21 377 30 HOH HOH . 
G 6 HOH A 22 378 31 HOH HOH . 
G 6 HOH A 23 379 32 HOH HOH . 
G 6 HOH A 24 380 33 HOH HOH . 
G 6 HOH A 25 381 34 HOH HOH . 
G 6 HOH A 26 382 36 HOH HOH . 
G 6 HOH A 27 383 37 HOH HOH . 
G 6 HOH A 28 384 38 HOH HOH . 
G 6 HOH A 29 385 40 HOH HOH . 
G 6 HOH A 30 386 41 HOH HOH . 
G 6 HOH A 31 387 42 HOH HOH . 
G 6 HOH A 32 388 43 HOH HOH . 
G 6 HOH A 33 389 44 HOH HOH . 
G 6 HOH A 34 390 45 HOH HOH . 
G 6 HOH A 35 391 47 HOH HOH . 
G 6 HOH A 36 392 50 HOH HOH . 
G 6 HOH A 37 393 52 HOH HOH . 
G 6 HOH A 38 394 53 HOH HOH . 
G 6 HOH A 39 395 54 HOH HOH . 
G 6 HOH A 40 396 55 HOH HOH . 
G 6 HOH A 41 397 59 HOH HOH . 
G 6 HOH A 42 398 60 HOH HOH . 
G 6 HOH A 43 399 61 HOH HOH . 
G 6 HOH A 44 400 62 HOH HOH . 
G 6 HOH A 45 401 64 HOH HOH . 
G 6 HOH A 46 402 69 HOH HOH . 
G 6 HOH A 47 403 71 HOH HOH . 
G 6 HOH A 48 404 73 HOH HOH . 
G 6 HOH A 49 405 74 HOH HOH . 
G 6 HOH A 50 406 76 HOH HOH . 
G 6 HOH A 51 407 78 HOH HOH . 
G 6 HOH A 52 408 79 HOH HOH . 
G 6 HOH A 53 409 82 HOH HOH . 
G 6 HOH A 54 410 83 HOH HOH . 
G 6 HOH A 55 411 84 HOH HOH . 
G 6 HOH A 56 412 85 HOH HOH . 
G 6 HOH A 57 413 88 HOH HOH . 
G 6 HOH A 58 414 89 HOH HOH . 
G 6 HOH A 59 415 90 HOH HOH . 
G 6 HOH A 60 416 91 HOH HOH . 
G 6 HOH A 61 417 92 HOH HOH . 
G 6 HOH A 62 418 93 HOH HOH . 
G 6 HOH A 63 419 94 HOH HOH . 
G 6 HOH A 64 420 95 HOH HOH . 
G 6 HOH A 65 421 96 HOH HOH . 
G 6 HOH A 66 422 97 HOH HOH . 
G 6 HOH A 67 423 98 HOH HOH . 
G 6 HOH A 68 424 99 HOH HOH . 
G 6 HOH A 69 425 100 HOH HOH . 
G 6 HOH A 70 426 101 HOH HOH . 
G 6 HOH A 71 427 103 HOH HOH . 
G 6 HOH A 72 428 105 HOH HOH . 
G 6 HOH A 73 429 108 HOH HOH . 
G 6 HOH A 74 430 109 HOH HOH . 
G 6 HOH A 75 431 110 HOH HOH . 
G 6 HOH A 76 432 111 HOH HOH . 
G 6 HOH A 77 433 115 HOH HOH . 
G 6 HOH A 78 434 117 HOH HOH . 
G 6 HOH A 79 435 118 HOH HOH . 
G 6 HOH A 80 436 119 HOH HOH . 
G 6 HOH A 81 437 123 HOH HOH . 
G 6 HOH A 82 438 124 HOH HOH . 
G 6 HOH A 83 439 125 HOH HOH . 
G 6 HOH A 84 440 126 HOH HOH . 
G 6 HOH A 85 441 127 HOH HOH . 
G 6 HOH A 86 442 131 HOH HOH . 
G 6 HOH A 87 443 133 HOH HOH . 
G 6 HOH A 88 444 134 HOH HOH . 
G 6 HOH A 89 445 135 HOH HOH . 
G 6 HOH A 90 446 138 HOH HOH . 
G 6 HOH A 91 447 139 HOH HOH . 
G 6 HOH A 92 448 140 HOH HOH . 
G 6 HOH A 93 449 141 HOH HOH . 
G 6 HOH A 94 450 142 HOH HOH . 
G 6 HOH A 95 451 143 HOH HOH . 
G 6 HOH A 96 452 224 HOH HOH . 
G 6 HOH A 97 453 225 HOH HOH . 
G 6 HOH A 98 454 227 HOH HOH . 
G 6 HOH A 99 455 228 HOH HOH . 
G 6 HOH A 100 456 229 HOH HOH . 
G 6 HOH A 101 457 231 HOH HOH . 
G 6 HOH A 102 458 232 HOH HOH . 
G 6 HOH A 103 459 234 HOH HOH . 
G 6 HOH A 104 460 235 HOH HOH . 
G 6 HOH A 105 461 238 HOH HOH . 
G 6 HOH A 106 462 239 HOH HOH . 
G 6 HOH A 107 463 241 HOH HOH . 
G 6 HOH A 108 464 242 HOH HOH . 
G 6 HOH A 109 465 243 HOH HOH . 
G 6 HOH A 110 466 246 HOH HOH . 
G 6 HOH A 111 467 247 HOH HOH . 
G 6 HOH A 112 468 248 HOH HOH . 
G 6 HOH A 113 469 250 HOH HOH . 
G 6 HOH A 114 470 251 HOH HOH . 
G 6 HOH A 115 471 252 HOH HOH . 
G 6 HOH A 116 472 254 HOH HOH . 
G 6 HOH A 117 473 255 HOH HOH . 
G 6 HOH A 118 474 256 HOH HOH . 
G 6 HOH A 119 475 257 HOH HOH . 
G 6 HOH A 120 476 258 HOH HOH . 
G 6 HOH A 121 477 259 HOH HOH . 
G 6 HOH A 122 478 263 HOH HOH . 
G 6 HOH A 123 479 264 HOH HOH . 
G 6 HOH A 124 480 265 HOH HOH . 
G 6 HOH A 125 481 267 HOH HOH . 
G 6 HOH A 126 482 270 HOH HOH . 
G 6 HOH A 127 483 272 HOH HOH . 
G 6 HOH A 128 484 275 HOH HOH . 
G 6 HOH A 129 485 279 HOH HOH . 
H 6 HOH B 1 211 10 HOH HOH . 
H 6 HOH B 2 212 11 HOH HOH . 
H 6 HOH B 3 213 12 HOH HOH . 
H 6 HOH B 4 214 13 HOH HOH . 
H 6 HOH B 5 215 14 HOH HOH . 
H 6 HOH B 6 216 18 HOH HOH . 
H 6 HOH B 7 217 20 HOH HOH . 
H 6 HOH B 8 218 21 HOH HOH . 
H 6 HOH B 9 219 28 HOH HOH . 
H 6 HOH B 10 220 35 HOH HOH . 
H 6 HOH B 11 221 39 HOH HOH . 
H 6 HOH B 12 222 46 HOH HOH . 
H 6 HOH B 13 223 48 HOH HOH . 
H 6 HOH B 14 224 49 HOH HOH . 
H 6 HOH B 15 225 51 HOH HOH . 
H 6 HOH B 16 226 226 HOH HOH . 
H 6 HOH B 17 227 56 HOH HOH . 
H 6 HOH B 18 228 57 HOH HOH . 
H 6 HOH B 19 229 58 HOH HOH . 
H 6 HOH B 20 230 230 HOH HOH . 
H 6 HOH B 21 231 63 HOH HOH . 
H 6 HOH B 22 232 65 HOH HOH . 
H 6 HOH B 23 233 233 HOH HOH . 
H 6 HOH B 24 234 66 HOH HOH . 
H 6 HOH B 25 235 67 HOH HOH . 
H 6 HOH B 26 236 236 HOH HOH . 
H 6 HOH B 27 237 237 HOH HOH . 
H 6 HOH B 28 238 68 HOH HOH . 
H 6 HOH B 29 239 70 HOH HOH . 
H 6 HOH B 30 240 240 HOH HOH . 
H 6 HOH B 31 241 72 HOH HOH . 
H 6 HOH B 32 242 75 HOH HOH . 
H 6 HOH B 33 243 77 HOH HOH . 
H 6 HOH B 34 244 244 HOH HOH . 
H 6 HOH B 35 245 80 HOH HOH . 
H 6 HOH B 36 246 81 HOH HOH . 
H 6 HOH B 37 247 86 HOH HOH . 
H 6 HOH B 38 248 102 HOH HOH . 
H 6 HOH B 39 249 249 HOH HOH . 
H 6 HOH B 40 250 104 HOH HOH . 
H 6 HOH B 41 251 106 HOH HOH . 
H 6 HOH B 42 252 107 HOH HOH . 
H 6 HOH B 43 253 253 HOH HOH . 
H 6 HOH B 44 254 112 HOH HOH . 
H 6 HOH B 45 255 114 HOH HOH . 
H 6 HOH B 46 256 116 HOH HOH . 
H 6 HOH B 47 257 120 HOH HOH . 
H 6 HOH B 48 258 121 HOH HOH . 
H 6 HOH B 49 259 122 HOH HOH . 
H 6 HOH B 50 260 260 HOH HOH . 
H 6 HOH B 51 261 261 HOH HOH . 
H 6 HOH B 52 262 262 HOH HOH . 
H 6 HOH B 53 263 128 HOH HOH . 
H 6 HOH B 54 264 129 HOH HOH . 
H 6 HOH B 55 265 130 HOH HOH . 
H 6 HOH B 56 266 266 HOH HOH . 
H 6 HOH B 57 267 132 HOH HOH . 
H 6 HOH B 58 268 268 HOH HOH . 
H 6 HOH B 59 269 269 HOH HOH . 
H 6 HOH B 60 270 136 HOH HOH . 
H 6 HOH B 61 271 271 HOH HOH . 
H 6 HOH B 62 272 137 HOH HOH . 
H 6 HOH B 63 273 273 HOH HOH . 
H 6 HOH B 64 274 274 HOH HOH . 
H 6 HOH B 65 276 276 HOH HOH . 
H 6 HOH B 66 277 277 HOH HOH . 
H 6 HOH B 67 278 278 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 GOL . . . C 3 9.72 -0.068 -18.019 1 29.42 ? C1 GOL 1228 A 1 
HETATM 2 O O1 GOL . . . C 3 9.953 1.13 -18.751 1 29.16 ? O1 GOL 1228 A 1 
HETATM 3 C C2 GOL . . . C 3 8.278 -0.538 -18.3 1 30.94 ? C2 GOL 1228 A 1 
HETATM 4 O O2 GOL . . . C 3 7.373 0.4 -17.797 1 32.95 ? O2 GOL 1228 A 1 
HETATM 5 C C3 GOL . . . C 3 7.966 -0.846 -19.789 1 30.91 ? C3 GOL 1228 A 1 
HETATM 6 O O3 GOL . . . C 3 8.804 -1.934 -20.221 1 31.85 ? O3 GOL 1228 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           6 
#